2XCV Hydrolase date Apr 26, 2010
title Crystal Structure Of The D52n Variant Of Cytosolic 5'- Nucleotidase II In Complex With Inosine Monophosphate And 2,3-Bisphosphoglycerate
authors K.Wallden, P.Nordlund
compound source
Molecule: Cytosolic Purine 5'-Nucleotidase
Chain: A
Synonym: Cytosolic 5'-Nucleotidase II
Ec: 3.1.3.5
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_variant: R3 Prare2
Expression_system_vector_type: Plasmid
Expression_system_vector: P28a-Lic
symmetry Space Group: I 2 2 2
R_factor 0.17627 R_Free 0.22868
crystal
cell
length a length b length c angle alpha angle beta angle gamma
91.570 127.790 130.610 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand DG2, GOL, IMP, MG enzyme Hydrolase E.C.3.1.3.5 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A
  • 5'-nucleotidase activity


  • Primary referenceStructural Basis for the Allosteric Regulation and Substrate Recognition of Human Cytosolic 5'-Nucleotidase II., Wallden K, Nordlund P, J Mol Biol. 2011 May 13;408(4):684-96. Epub 2011 Mar 17. PMID:21396942
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (91 Kb) [Save to disk]
  • Biological Unit Coordinates (2xcv.pdb1.gz) 335 Kb
  • LPC: Ligand-Protein Contacts for 2XCV
  • CSU: Contacts of Structural Units for 2XCV
  • Structure Factors (484 Kb)
  • Retrieve 2XCV in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2XCV from S2C, [Save to disk]
  • Re-refined 2xcv structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2XCV in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 2XCV
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2XCV, from MSDmotif at EBI
  • Fold representative 2xcv from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2xcv_A] [2xcv]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 2XCV
  • Community annotation for 2XCV at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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